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EGFLAM EGF like, fibronectin type III and laminin G domains [ Homo sapiens (human) ]

Gene ID: 133584, updated on 29-Mar-2020

Summary

Official Symbol
EGFLAMprovided by HGNC
Official Full Name
EGF like, fibronectin type III and laminin G domainsprovided by HGNC
Primary source
HGNC:HGNC:26810
See related
Ensembl:ENSG00000164318 MIM:617683
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PIKA; AGRNL; AGRINL
Expression
Broad expression in placenta (RPKM 12.2), fat (RPKM 7.7) and 17 other tissues See more
Orthologs

Genomic context

See EGFLAM in Genome Data Viewer
Location:
5p13.2-p13.1
Exon count:
24
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (38258559..38465480)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (38258511..38465582)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2107 Neighboring gene long intergenic non-protein coding RNA 2119 Neighboring gene peroxiredoxin 4 pseudogene 2 Neighboring gene EGFLAM antisense RNA 4 Neighboring gene Sharpr-MPRA regulatory region 7458 Neighboring gene EGFLAM antisense RNA 2 Neighboring gene 60S ribosomal protein L27 pseudogene Neighboring gene uncharacterized LOC105374732 Neighboring gene LIF receptor subunit alpha Neighboring gene uncharacterized LOC105374735 Neighboring gene LIFR antisense RNA 1 Neighboring gene microRNA 3650

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ39155

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
glycosaminoglycan binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
animal organ morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dendrite development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular matrix organization IEA
Inferred from Electronic Annotation
more info
 
motor neuron axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptide cross-linking via chondroitin 4-sulfate glycosaminoglycan IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell-substrate adhesion IEA
Inferred from Electronic Annotation
more info
 
tissue development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
basement membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell projection IEA
Inferred from Electronic Annotation
more info
 
interstitial matrix IEA
Inferred from Electronic Annotation
more info
 
presynaptic active zone IEA
Inferred from Electronic Annotation
more info
 
synaptic cleft IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
pikachurin
Names
EGF-like, fibronectin type-III and laminin G-like domain-containing protein
agrin-like protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001205301.2NP_001192230.1  pikachurin isoform 5 precursor

    See identical proteins and their annotated locations for NP_001192230.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate in-frame exon in the coding region, compared to variant 1. The encoded isoform (5) is longer than isoform 1.
    Source sequence(s)
    AC010338, AC010457, AC091839
    Consensus CDS
    CCDS56363.1
    UniProtKB/Swiss-Prot
    Q63HQ2
    Related
    ENSP00000346964.3, ENST00000354891.7
    Conserved Domains (4) summary
    cd00054
    Location:792820
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00063
    Location:36133
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00110
    Location:391541
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam02210
    Location:868993
    Laminin_G_2; Laminin G domain
  2. NM_152403.4NP_689616.2  pikachurin isoform 1 precursor

    See identical proteins and their annotated locations for NP_689616.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AC010338, AC010457, AC091839
    Consensus CDS
    CCDS3924.1
    UniProtKB/Swiss-Prot
    Q63HQ2
    Related
    ENSP00000313084.5, ENST00000322350.10
    Conserved Domains (4) summary
    cd00054
    Location:792820
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00063
    Location:36133
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00110
    Location:391541
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam02210
    Location:860985
    Laminin_G_2; Laminin G domain
  3. NM_182798.3NP_877950.1  pikachurin isoform 2

    See identical proteins and their annotated locations for NP_877950.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC010457, AC091839, AK097549
    Consensus CDS
    CCDS3925.1
    UniProtKB/Swiss-Prot
    Q63HQ2
    Related
    ENSP00000337607.6, ENST00000336740.10
    Conserved Domains (3) summary
    cd00054
    Location:558586
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00110
    Location:157307
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam02210
    Location:626751
    Laminin_G_2; Laminin G domain
  4. NM_182801.3NP_877953.1  pikachurin isoform 4

    See identical proteins and their annotated locations for NP_877953.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream, in-frame start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC010457, BC033188, DN995271
    Consensus CDS
    CCDS47199.1
    UniProtKB/Swiss-Prot
    Q63HQ2
    Related
    ENSP00000380393.3, ENST00000397210.7
    Conserved Domains (1) summary
    pfam02210
    Location:3128
    Laminin_G_2; Laminin G domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    38258559..38465480
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_182799.1: Suppressed sequence

    Description
    NM_182799.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
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